RetrogeneDB ID: retro_ogar_3131

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873724.1:26596..27458(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000031957
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: CD47
• Ensembl ID: ENSOGAG00000002558
• Aliases: None
• Description: CD47 molecule [Source:HGNC Symbol;Acc:1682]

Sequence

>retro_ogar_3131
TCAGCATCCTGTGGAGCAGCTCAGCTACTAGTCAACAAAACAAAATCTGTAGAATATACCGTGTGCAATGAGACTGTTGC
CATCCCATGCTTTGTTATTAATATGGAGGCACTAAACACAAATGAAGTGTACATGAAGTGGAAATTTAAAGGAAGAGACA
TTTTCACCTTTGATGGACCTGACAACCATTCCACTCATGACTCAACTTTTAAGACTTCAAGAATTGACGTCTCAGAGTTA
CTGAAAGGAGATGCCACCTTGATGATACATCGGAGTAACTCTGTGGCAGGAAGCGACACTTGTGAAGTAACGGTAATGAG
CAGAGAAGGCGAAACAACCGTAGAAGTAAAATATTGTATTAGGTCATGGTTTTCTCCAAATGAAAGTATTCTCGTTATTT
TCCCAGTTTTGCTCTACTTCTGTTCTGGGGACAGTTTGGTATTAAAACGCTTCAATATAGATCTGGTCTTATGGACAAGA
AAACCATTGGTTTACTTGTTGCTGGACTATTGGTCACCATAATCATCATTGTTGGAGACATTCTTTTTATCCCAGGTGAA
TATTCAATAAAGAATGCTACTGGACTTGGTTTAATGGTAACTTCTACAGGATTATTAATAATACTTAACTACTATGTGTT
TAAAACAGATTTTAGGATTACCTCCTTCTCAACGCCCTACTGATTATTCAAGTGCTGGTCTATGTACCTGCTGGGGTTGG
ACTGAGTCTATGTATTTCAGCATGTACACCAGGGTATGGCCATCTCCTGATTTTAGGTTTGGGTATCTTTGCTCTCGTAC
AATTACTTGGGTTAGTTTATATGAAATTTGTGGCTTCCAATCAGAAGACCATACAACCTCCT

Alignment

ORF - retro_ogar_3131 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.51 %
• Parental protein coverage: 96.99 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  SASCARSAQLLFNKTKSVEYTVCNETISIPCFVINMEAENTNEVYVKWKFKGKDIYTFDGSDNRSTHDSA
          SASC...AQLL.NKTKSVEYTVCNET..IPCFVINMEA.NTNEVY.KWKFKG.DI.TFDG.DN.STHDS.
Retrocopy SASCG-AAQLLVNKTKSVEYTVCNETVAIPCFVINMEALNTNEVYMKWKFKGRDIFTFDGPDNHSTHDST

Parental  FKTSGIKISELLKGDATLMMHQSNAVPGNYTCEVTVLSREGETTIEVKYRIVSWFSPNENILIVIFPV-F
          FKTS.I..SELLKGDATLM.H.SN.V.G..TCEVTV.SREGETT.EVKY.I.SWFSPNE.IL.VIFPV.F
Retrocopy FKTSRIDVSELLKGDATLMIHRSNSVAGSDTCEVTVMSREGETTVEVKYCIRSWFSPNESIL-VIFPV<F

Parental  ALLLFWGQFGIKTLQYRSGRMDEKTIGLLVAGLLVTIIIIVGAILFVPGEYSVKNATGLGLIVTSTGLLI
          ALLLFWGQFGIKTLQYRSG.MD.KTIGLLVAGLLVTIIIIVG.ILF.PGEYS.KNATGLGL.VTSTGLLI
Retrocopy ALLLFWGQFGIKTLQYRSGLMDKKTIGLLVAGLLVTIIIIVGDILFIPGEYSIKNATGLGLMVTSTGLLI

Parental  ILNYYVFKTAFGITSF-VIALLIIQVLVYVLAGVGLSLCISACTPVHGPVLISGLGIFALVQLLGLIYMK
          ILNYYVFKT.F.ITSF...ALLIIQVLVYV.AGVGLSLCISACTP..G..LI.GLGIFALVQLLGL.YMK
Retrocopy ILNYYVFKTDFRITSF<LNALLIIQVLVYVPAGVGLSLCISACTPGYGHLLILGLGIFALVQLLGLVYMK

Parental  FVGSKKCIDNPP
          FV.S......PP
Retrocopy FVASNQKTIQPP

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Otolemur garnettii was not studied using RNA-Seq expression data.

ChIP-Seq

Otolemur garnettii was not studied using ChIP-Seq data.

EST

Otolemur garnettii was not studied using EST data.

TSS

Otolemur garnettii was not studied using FANTOM5 data.

Lab

retro_ogar_3131 was not experimentally validated.

Homology

Retrocopy orthology:

Otolemur garnettii does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

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Parental genes homology:

Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000002558	1 retrocopy	retro_ogar_3131 ,